Shunta Sakaguchi

Monju: Multi-criteria clustering in single-cell omics

Monju performs multi-criteria clustering on single-cell omics data by integrating multiple clustering solutions to assess cluster stability.

Zero-shot reconstruction of mutant spatial transcriptomes

This paper introduces a zero-shot framework to predict spatial transcriptomes of mutants using single-cell RNA sequencing data without requiring spatial reference atlases.

Cell-intrinsic compliance mechanism enables release of tensile stress to prevent tissue rupture

The paper shows that the Drosophila amnioserosa uses mechanical compliance to release tensile stress and prevent tissue rupture during gastrulation.

Disentanglement of batch effects and biological signals across conditions in the single-cell transcriptome

This paper introduces Kanade, a variational autoencoder-based method that disentangles batch effects from biological signals in single-cell transcriptomics, improving comparative analysis across conditions.

Single-cell transcriptome atlas of Drosophila gastrula 2.0

The paper presents a single-cell transcriptome atlas of Drosophila gastrulae, identifying 65 clusters and revealing spatial gene expression patterns across germ layers.

Model-based prediction of spatial gene expression via generative linear mapping

Perler predicts spatial gene expression from scRNA-seq data by integrating with in situ hybridization data using a generative linear model, achieving accurate and interpretable results across multiple tissues.